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EGEE'08 Istanbul

22โ€“26 Sept 2008
Harbiye Askeri Museum
Europe/Zurich timezone

Session

Bioinformatics Community Meeting

23 Sept 2008, 14:00
Harbiye Askeri Museum

Harbiye Askeri Museum

Istanbul

Description

The Bioinformatics domain studies genes, proteins, and all components of living organisms. These include enabling system biology on grid, oncology study at the molecular level, genome wide association studies of human complex diseases, binding of protein and DNA in the cell nucleus, complete genome comparison, as well as portals or web services that enable grid access for users in areas such as protein sequence or genome level analysis. Several bioinformatics applications are now established as regular users of the grid infrastructure, and we are collaborating with related projects to port a broad spectrum of applications to the EGEE grid. The main goal is to build a bioinformatics community of scientists using the grid and to provide them with common biological databases and tools on the EGEE platform

Presentation materials

  1. 114. Predictive biological networks - an EGEE GRID application
    Dr Ralf Herwig (Max Planck Institute for Molecular Genetics)
    23/09/2008, 14:00
    Oral contribution
    Predicting the effect of perturbations of complex biological systems is key to being able to solve important problems, in particular in the case of human diseases. It is highly likely, that such predictions will have to be based on computer models that represent all relevant components of the networks involved as well as their interactions in sufficient detail and accuracy. Establishment of...
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  2. 115. Grid based genetic population analysis challenges for Genetic Linkage Analysis of SNPs
    Dr Luciano Milanesi (National Research Council - Institute of Biomedical Technologies)
    23/09/2008, 14:30
    Oral contribution
    The aim of the present work is to enable the use of high performance computing infrastructures, such as the EGEE-III Grid Infrastructures for the execution of linkage analysis on very large SNPs (Single Nucleotide Polymorphism) data sets markers. The test has been performed with 10.000 SNPs up to 1 million per Chip. The linkege analysis of SNPs recently become a very popular approach for...
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  3. 124. Experiences on metagenomic analysis using the EGEE grid
    Dr Ignacio Blanquer (UPV)
    23/09/2008, 14:45
    Oral contribution
    The execution of BLAST runs of metagenomes with respect to annotation databases, such as the Non Redundant (nr) from the NCBI provides many interesting results, such as the incoherencies in the annotation of entries in the reference databases [1] or the definition of more precise phylogenetic trees. In the frame of EGEE, the UPV has developed in collaboration with the Institute...
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  4. 138. Using the grid to solve a bioinformatics Challenge: Locating nucleosome positions
    Dr Christophe Blanchet (CNRS IBCP)
    23/09/2008, 15:00
    Oral contribution
    How proteins find their targets amongst millions (or more) of competing sites is still largely an unsolved problem. Understanding this process in detail is however central to understanding the mechanisms underlying gene expression. The problem becomes even harder when a complex of several proteins bind to DNA, an in the case of the nucleosome core particle. The nucleosome involves an eight...
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  5. 271. Integration of EMBRACE-compliant Services on the Grid
    Mr Matthieu Reichstadt (CNRS/IN2P3)
    23/09/2008, 15:15
    Oral contribution
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